Origin IGS: ctatttcaattgaaaagtaaacggttatattttttcaagcgcacaaaggtaggcgattttccgaaatgttcaaatttttgcctccataccttgaccatcggaaaagaataaaatggaatagatagaaaaaaagcgttagactatttgctttgataaaaaaaagcgtttatctttgcagcccaattcacgactaataataaaaacaagataataag .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 cttattatcttgtttttattattagtcgtgaattgggctgcaaagataaacgcttttttttatcaaagcaaatagtctaacgctttttttctatctattccattttattcttttccgatggtcaaggtatggaggcaaaaatttgaacatttcggaaaatcgcctacctttgtgcgcttgaaaaaatataaccgtttacttttcaattgaaatag Mask Tandem Repeat Region ================================================ ctatttcaattgaaaagtaaacggttatattttttcaagcgcacaaaggtaggcgattttccgaaatgttcaaatttttgcctccataccttgaccatcggaaaagaataaaatggaatagatagaaaaaaagcgttagactatttgctttgataaaaaaaagcgtttatctttgcagcccaattcacgactaataataaaaacaagataataag Find is-nt database================================================ Query_seq: TF0947:TF0948|TF0947:TF0948:extracellular protease:50S ribosomal protein L34:->->:993611..993825 215 ctatttcaattgaaaagtaaacggttatattttttcaagcgcacaaaggtaggcgattttccgaaatgttcaaatttttgcctccataccttgaccatcggaaaagaataaaatggaatagatagaaaaaaagcgttagactatttgctttgataaaaaaaagcgtttatctttgcagcccaattcacgactaataataaaaacaagataataag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0947:TF0948|TF0947:TF0948:extracellular protease:50S ribosomal protein L34:->->:993611..993825 215 ctatttcaattgaaaagtaaacggttatattttttcaagcgcacaaaggtaggcgattttccgaaatgttcaaatttttgcctccataccttgaccatcggaaaagaataaaatggaatagatagaaaaaaagcgttagactatttgctttgataaaaaaaagcgtttatctttgcagcccaattcacgactaataataaaaacaagataataag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0947:TF0948|TF0947:TF0948:extracellular protease:50S ribosomal protein L34:->->:993611..993825 215 ctatttcaattgaaaagtaaacggttatattttttcaagcgcacaaaggtaggcgattttccgaaatgttcaaatttttgcctccataccttgaccatcggaaaagaataaaatggaatagatagaaaaaaagcgttagactatttgctttgataaaaaaaagcgtttatctttgcagcccaattcacgactaataataaaaacaagataataag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ctatttcaattgaaaagtaaacggttatattttttcaagcgcacaaaggtaggcgattttccgaaatgttcaaatttttgcctccataccttgaccatcggaaaagaataaaatggaatagatagaaaaaaagcgttagactatttgctttgataaaaaaaagcgtttatctttgcagcccaattcacgactaataataaaaacaagataataag Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 10 End: 108 ......... M K S K R L Y F F K R T K V G D F P K C S N F C L H T L T I G K E ........................................................................................................... Protein_Len: 32 Strand: + Start: 27 End: 122 .......................... M F F Q A H K G R R F S E M F K F L P P Y L D H R K R I K W N R ............................................................................................. Protein_Len: 39 Strand: - Start: 38 End: 154 ..................................... A C L P L R N E S I N L N K G G Y R S W R F L I F H F L Y F F L T L S N A K M ............................................................. Protein_Len: 37 Strand: - Start: 9 End: 119 ........ N F L L R N Y K K L R V F T P S K G F H E F K Q R W V K V M P F S Y F P M ................................................................................................ ctatttcaattgaaaagtaaacggttatattttttcaagcgcacaaaggtaggcgattttccgaaatgttcaaatttttgcctccataccttgaccatcggaaaagaataaaatggaatagatagaaaaaaagcgttagactatttgctttgataaaaaaaagcgtttatctttgcagcccaattcacgactaataataaaaacaagataataag Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ ctatttcaattgaaaagtaaacggttatattttttcaagcgcacaaaggtaggcgattttccgaaatgttcaaatttttgcctccataccttgaccatcggaaaagaataaaatggaatagatagaaaaaaagcgttagactatttgctttgataaaaaaaagcgtttatctttgcagcccaattcacgactaataataaaaacaagataataag Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0947:TF0948|TF0947:TF0948:extracellular protease:50S ribosomal protein L34:->->:993611..993825 215 ctatttcaattgaaaagtaaacggttatattttttcaagcgcacaaaggtaggcgattttccgaaatgttcaaatttttgcctccataccttgaccatcggaaaagaataaaatggaatagatagaaaaaaagcgttagactatttgctttgataaaaaaaagcgtttatctttgcagcccaattcacgactaataataaaaacaagataataag Intra-Species Hit: Count: 1 Min: 1 Max: 215 Len: 215 Subject: tfor_TF0947_TF0948|extracellular protease:50S ribosomal protein L34|POSITIVE:POSITIVE|[993611,993825]|215 HSP 1 e-value: 9.0E-92 bit: 337.0 Len: 215 Query Start:1 Query End:215 Subject Strand: POSITIVE Subject Start: 1 Subject End: 215 ctatttcaattgaaaagtaaacggttatattttttcaagcgcacaaaggtaggcgattttccgaaatgttcaaatttttgcctccataccttgaccatcggaaaagaataaaatggaatagatagnnnnnnngcgttagactatttgctttgatnnnnnnnngcgtttatctttgcagcccaattcacgactaataataaaaacaagataataag ctatttcaattgaaaagtaaacggttatattttttcaagcgcacaaaggtaggcgattttccgaaatgttcaaatttttgcctccataccttgaccatcggaaaagaataaaatggaatagatagaaaaaaagcgttagactatttgctttgataaaaaaaagcgtttatctttgcagcccaattcacgactaataataaaaacaagataataag Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUAUUUCAAUUGAAAAGUAAACGGUUAUAUUUUUUCAAGCGCACAAAGGUAGGCGAUUUUCCGAAAUGUUCAAAUUUUUGCCUCCAUACCUUGACCAUCGGAAAAGAAUAAAAUGGAAUAGAUAGAAAAAAAGCGUUAGACUAUUUGCUUUGAUAAAAAAAAGCGUUUAUCUUUGCAGCCCAAUUCACGACUAAUAAUAAAAACAAGAUAAUAAG ((((((((.((((((((.............)))))))).(((.(.......)))).((((((((..((.((((.....((....))....)))).))))))))))........))))))))...........(((..(((.((..((((((........))))))..))))).)))....................................... (-33.02) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUAUUAUCUUGUUUUUAUUAUUAGUCGUGAAUUGGGCUGCAAAGAUAAACGCUUUUUUUUAUCAAAGCAAAUAGUCUAACGCUUUUUUUCUAUCUAUUCCAUUUUAUUCUUUUCCGAUGGUCAAGGUAUGGAGGCAAAAAUUUGAACAUUUCGGAAAAUCGCCUACCUUUGUGCGCUUGAAAAAAUAUAACCGUUUACUUUUCAAUUGAAAUAG ..........((((((.(((..(((((........))))).((((.((((((.((..((((.((((.(((.....................(((((...(((((............)))))...))))).((((((.....(((((.....))))).....)))).))....)))..)))).))))...)).))))))))))..))).)))))). (-33.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 303 85 44 145 103 tfor:TF2146|5end_secreted_sulfatase_ydeN_precursor_2320219..2320449_POSITIVE 296 121 81 86 41 tfor:TF0190|5end_cell_division_protein_FtsH_204029..204259_POSITIVE 289 101 61 88 44 tfor:TF2657|5end_conserved_hypothetical_protein_2829729..2829959_POSITIVE 289 87 44 42 1 tfor:TF0560|5end_DNA-binding_protein_592164..592394_POSITIVE 287 180 132 58 3 tfor:TF0930|5end_conserved_hypothetical_protein;_possible_prophage_protein_968782..969012_POSITIVE 285 79 34 85 44 tfor:TF1158|5end_outer_membrane_lipoprotein,_NlpE_involved_in_copper_resistance_1239618..1239848_POSITIVE 282 63 21 55 16 tfor:TF2951|5end_O-succinylbenzoic_acid--CoA_ligase_3158496..3158726_POSITIVE 282 189 141 169 117 tfor:TF0759|5end_heat_shock_protein_15,_RNA-binding_domain_S4_805870..806100_POSITIVE 276 101 62 76 28 tfor:TF1856|5end_conserved_hypothetical_protein_2009969..2010199_POSITIVE 276 90 41 181 120 tfor:TF1245|5end_LemA_protein_1328822..1329052_POSITIVE 276 68 46 77 56 tfor:TF1242|5end_3-methyl-2-oxobutanoate_hydroxymethyltransferase_1326216..1326446_POSITIVE 270 103 61 201 152 tfor:TF1611|5end_conserved_hypothetical_protein;_possible_glycosyl_transferase_1729620..1729850_POSITIVE 270 92 54 90 59 tfor:TF0864|5end_O-succinylbenzoate--CoA_ligase_914570..914800_POSITIVE 269 197 163 55 10 tfor:TF1758|5end_conserved_hypothetical_protein_1894769..1894999_POSITIVE 268 180 134 166 120 tfor:TF2438|5end_hypothetical_protein_2615781..2616011_POSITIVE 265 65 36 58 31 tfor:TF1004|5end_ABC_transporter,_ATP-binding_protein_1058861..1059091_POSITIVE 264 179 133 158 101 tfor:TF2364|5end_conserved_hypothetical_protein;_possible_DNA_binding_protein,_excisionase_family_2530362..2530592_POSITIVE 263 63 22 119 65 tfor:TF0378|5end_aspartyl-tRNA_synthetase_397641..397871_POSITIVE 262 70 21 94 47 tfor:TF2430|5end_hypothetical_protein_2612660..2612890_POSITIVE 261 57 20 52 17 tfor:TF2263|5end_transfer_region-related_protein,_TraN_2431901..2432131_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 303 85 44 76 34 tfor:TF2145|3end_conserved_hypothetical_protein;_possible_rhodanese-domain_protein_2320230..2320380_POSITIVE 296 121 81 67 22 tfor:TF0189|3end_phosphatidate_cytidylytransferase_(CDP-diglyceride_synthetase)_204090..204240_POSITIVE 289 101 61 101 57 tfor:TF2656|3end_valyl-tRNA_synthetase_2829822..2829972_POSITIVE 287 194 154 110 71 tfor:TF2196|3end_hypothetical_protein_2372180..2372330_POSITIVE 287 180 132 58 3 tfor:TF0929|3end_conserved_hypothetical_protein_968862..969012_POSITIVE 277 181 143 102 63 tfor:TF1654|3end_hypothetical_protein_1768705..1768855_POSITIVE 276 90 41 92 31 tfor:TF1244|3end_hypothetical_protein_1328813..1328963_POSITIVE 276 68 46 53 32 tfor:TF1241|3end_prolyl-tRNA_synthetase_1326272..1326422_POSITIVE 268 180 134 49 3 tfor:TF2437|3end_elongation_factor_P_2615744..2615894_POSITIVE 267 89 49 70 31 tfor:TF2881|3end_conserved_hypothetical_protein_3072380..3072530_POSITIVE 265 65 36 51 24 tfor:TF1003|3end_conserved_hypothetical_protein;_possible_secreted_glycosylhydrolase_1058934..1059084_POSITIVE 262 70 21 88 41 tfor:TF2429|3end_ABC_transporter,_ATP-binding/permease_component,_bacteriocin/lantibiotic_exporter_2612734..2612884_POSITIVE 258 100 57 60 16 tfor:TF2280|3end_hypothetical_protein_2439474..2439624_POSITIVE 257 71 35 61 30 tfor:TF0877|3end_ISPg2-related_(PGIS2-related)_transposase_931817..931967_POSITIVE 256 180 131 82 33 tfor:TF0411|3end_methyltransferase_429755..429905_POSITIVE 254 63 22 53 12 tfor:TF1173|3end_ABC_transporter,_permease_component_1256651..1256801_POSITIVE 253 84 41 101 51 tfor:TF0567|3end_conserved_hypothetical_protein;_possible_periplasmic_solute-binding_protein_600134..600284_POSITIVE 251 80 38 64 23 tfor:TF2803|3end_dehydrogenase,_possible_NADH-dependent_dehydrogenase_2993467..2993617_POSITIVE 250 70 23 95 50 tfor:TF1147|3end_anthranilate_synthase_component_II_1228216..1228366_POSITIVE 244 63 22 72 28 tfor:TF2735|3end_hypothetical_protein_2917928..2918078_POSITIVE